Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB

T. Z. DeSantis, P. Hugenholtz, N. Larsen, M. Rojas, E. L. Brodie, K. Keller, T. Huber, D. Dalevi, P. Hu, G. L. Andersen*

*Corresponding author for this work

Research output: Contribution to journalArticlepeer-review

8489 Citations (Scopus)

Abstract

A 16S rRNA gene database (http://greengenes.lbl.gov) addresses limitations of public repositories by providing chimera screening, standard alignment, and taxonomic classification using multiple published taxonomies. It was found that there is incongruent taxonomic nomenclature among curators even at the phylum level. Putative chimeras were identified in 3% of environmental sequences and in 0.2% of records derived from isolates. Environmental sequences were classified into 100 phylum-level lineages in the Archaea and Bacteria.

Original languageEnglish
Pages (from-to)5069-5072
Number of pages4
JournalApplied and Environmental Microbiology
Volume72
Issue number7
DOIs
Publication statusPublished - Jul 2006
Externally publishedYes

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